{
"@context": "/terms/",
"@id": "/measurement-sets/IGVFDS9126DKWW/",
"@type": [
"MeasurementSet",
"FileSet",
"Item"
],
"accession": "IGVFDS9126DKWW",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC_AmpliconSequencing"
],
"assay_term": {
"@id": "/assay-terms/OBI_0003661/",
"assay_slims": [
"CRISPR screens"
],
"status": "released",
"term_name": "in vitro CRISPR screen using flow cytometry"
},
"audit": {
"INTERNAL_ACTION": [
{
"category": "mismatched status",
"detail": "Released in vitro system [IGVFSM1488CZUU](/in-vitro-systems/IGVFSM1488CZUU/) has in progress subobject construct library set [IGVFDS2374NXLW](/construct-library-sets/IGVFDS2374NXLW/).",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_item_status",
"path": "/in-vitro-systems/IGVFSM1488CZUU/"
},
{
"category": "missing publication",
"detail": "In vitro system [IGVFSM1488CZUU](/in-vitro-systems/IGVFSM1488CZUU/) has no `publications`. Released and archived samples are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_sample_missing_publication",
"path": "/in-vitro-systems/IGVFSM1488CZUU/"
},
{
"category": "missing publication",
"detail": "Measurement set [IGVFDS9126DKWW](/measurement-sets/IGVFDS9126DKWW/) has no `publications`. Released and archived file sets are expected to be associated with a publication.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_file_set_missing_publication",
"path": "/measurement-sets/IGVFDS9126DKWW/"
},
{
"category": "missing sequencing kit",
"detail": "Measurement set [IGVFDS9126DKWW](/measurement-sets/IGVFDS9126DKWW/) has sequence file(s) [IGVFFI7331MKFX](/sequence-files/IGVFFI7331MKFX/), [IGVFFI0842KHTY](/sequence-files/IGVFFI0842KHTY/), [IGVFFI8689KTIE](/sequence-files/IGVFFI8689KTIE/), [IGVFFI7241SEXZ](/sequence-files/IGVFFI7241SEXZ/), [IGVFFI5598LNFE](/sequence-files/IGVFFI5598LNFE/), [IGVFFI9160JPFJ](/sequence-files/IGVFFI9160JPFJ/), [IGVFFI9098EJGL](/sequence-files/IGVFFI9098EJGL/), [IGVFFI3011PPJO](/sequence-files/IGVFFI3011PPJO/), [IGVFFI7936ZYCP](/sequence-files/IGVFFI7936ZYCP/), [IGVFFI8114PNBO](/sequence-files/IGVFFI8114PNBO/), [IGVFFI0612CNEB](/sequence-files/IGVFFI0612CNEB/), [IGVFFI7172AMPH](/sequence-files/IGVFFI7172AMPH/), [IGVFFI7906BTLR](/sequence-files/IGVFFI7906BTLR/), [IGVFFI6541PUGX](/sequence-files/IGVFFI6541PUGX/), [IGVFFI1659UYGZ](/sequence-files/IGVFFI1659UYGZ/), [IGVFFI8286VIOO](/sequence-files/IGVFFI8286VIOO/), [IGVFFI7354VXKL](/sequence-files/IGVFFI7354VXKL/), [IGVFFI9442PKBX](/sequence-files/IGVFFI9442PKBX/), [IGVFFI0295UQYX](/sequence-files/IGVFFI0295UQYX/), [IGVFFI5592BNTX](/sequence-files/IGVFFI5592BNTX/), [IGVFFI9587BSPL](/sequence-files/IGVFFI9587BSPL/), [IGVFFI4688NGNU](/sequence-files/IGVFFI4688NGNU/), [IGVFFI4942LUEV](/sequence-files/IGVFFI4942LUEV/), [IGVFFI9662YHWJ](/sequence-files/IGVFFI9662YHWJ/), [IGVFFI8114SXIX](/sequence-files/IGVFFI8114SXIX/), [IGVFFI3078NRBR](/sequence-files/IGVFFI3078NRBR/), [IGVFFI2795CFUT](/sequence-files/IGVFFI2795CFUT/), [IGVFFI7922MDZC](/sequence-files/IGVFFI7922MDZC/), [IGVFFI6314AXIQ](/sequence-files/IGVFFI6314AXIQ/), [IGVFFI2363WZZB](/sequence-files/IGVFFI2363WZZB/), [IGVFFI5894XEVD](/sequence-files/IGVFFI5894XEVD/), [IGVFFI0563VEXH](/sequence-files/IGVFFI0563VEXH/), [IGVFFI9807GRVB](/sequence-files/IGVFFI9807GRVB/), [IGVFFI8627RIAN](/sequence-files/IGVFFI8627RIAN/), [IGVFFI1578XZVS](/sequence-files/IGVFFI1578XZVS/), [IGVFFI5961PXUV](/sequence-files/IGVFFI5961PXUV/), [IGVFFI8035NMOJ](/sequence-files/IGVFFI8035NMOJ/), [IGVFFI7205HPYL](/sequence-files/IGVFFI7205HPYL/), [IGVFFI5000CVQY](/sequence-files/IGVFFI5000CVQY/), [IGVFFI6815SVWK](/sequence-files/IGVFFI6815SVWK/), [IGVFFI7326LCAT](/sequence-files/IGVFFI7326LCAT/), [IGVFFI2580HYWK](/sequence-files/IGVFFI2580HYWK/), [IGVFFI7592LXAT](/sequence-files/IGVFFI7592LXAT/), [IGVFFI1054LOMD](/sequence-files/IGVFFI1054LOMD/), [IGVFFI7318XXJP](/sequence-files/IGVFFI7318XXJP/), [IGVFFI0722LYVA](/sequence-files/IGVFFI0722LYVA/), [IGVFFI9903IIJQ](/sequence-files/IGVFFI9903IIJQ/), [IGVFFI7303UDJH](/sequence-files/IGVFFI7303UDJH/) which lack specification of a `sequencing_kit`. Sequence files in a file set associated wtih bulk data should specify a sequencing kit.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_inconsistent_sequencing_kit",
"path": "/measurement-sets/IGVFDS9126DKWW/"
},
{
"category": "missing sequence specification",
"detail": "Measurement set [IGVFDS9126DKWW](/measurement-sets/IGVFDS9126DKWW/) has sequence file(s): [IGVFFI7331MKFX](/sequence-files/IGVFFI7331MKFX/), [IGVFFI0842KHTY](/sequence-files/IGVFFI0842KHTY/), [IGVFFI8689KTIE](/sequence-files/IGVFFI8689KTIE/), [IGVFFI7241SEXZ](/sequence-files/IGVFFI7241SEXZ/), [IGVFFI5598LNFE](/sequence-files/IGVFFI5598LNFE/), [IGVFFI9160JPFJ](/sequence-files/IGVFFI9160JPFJ/), [IGVFFI9098EJGL](/sequence-files/IGVFFI9098EJGL/), [IGVFFI3011PPJO](/sequence-files/IGVFFI3011PPJO/), [IGVFFI7936ZYCP](/sequence-files/IGVFFI7936ZYCP/), [IGVFFI8114PNBO](/sequence-files/IGVFFI8114PNBO/), [IGVFFI0612CNEB](/sequence-files/IGVFFI0612CNEB/), [IGVFFI7172AMPH](/sequence-files/IGVFFI7172AMPH/), [IGVFFI7906BTLR](/sequence-files/IGVFFI7906BTLR/), [IGVFFI6541PUGX](/sequence-files/IGVFFI6541PUGX/), [IGVFFI1659UYGZ](/sequence-files/IGVFFI1659UYGZ/), [IGVFFI8286VIOO](/sequence-files/IGVFFI8286VIOO/), [IGVFFI7354VXKL](/sequence-files/IGVFFI7354VXKL/), [IGVFFI9442PKBX](/sequence-files/IGVFFI9442PKBX/), [IGVFFI0295UQYX](/sequence-files/IGVFFI0295UQYX/), [IGVFFI5592BNTX](/sequence-files/IGVFFI5592BNTX/), [IGVFFI9587BSPL](/sequence-files/IGVFFI9587BSPL/), [IGVFFI4688NGNU](/sequence-files/IGVFFI4688NGNU/), [IGVFFI4942LUEV](/sequence-files/IGVFFI4942LUEV/), [IGVFFI9662YHWJ](/sequence-files/IGVFFI9662YHWJ/), [IGVFFI8114SXIX](/sequence-files/IGVFFI8114SXIX/), [IGVFFI3078NRBR](/sequence-files/IGVFFI3078NRBR/), [IGVFFI2795CFUT](/sequence-files/IGVFFI2795CFUT/), [IGVFFI7922MDZC](/sequence-files/IGVFFI7922MDZC/), [IGVFFI6314AXIQ](/sequence-files/IGVFFI6314AXIQ/), [IGVFFI2363WZZB](/sequence-files/IGVFFI2363WZZB/), [IGVFFI5894XEVD](/sequence-files/IGVFFI5894XEVD/), [IGVFFI0563VEXH](/sequence-files/IGVFFI0563VEXH/), [IGVFFI9807GRVB](/sequence-files/IGVFFI9807GRVB/), [IGVFFI8627RIAN](/sequence-files/IGVFFI8627RIAN/), [IGVFFI1578XZVS](/sequence-files/IGVFFI1578XZVS/), [IGVFFI5961PXUV](/sequence-files/IGVFFI5961PXUV/), [IGVFFI8035NMOJ](/sequence-files/IGVFFI8035NMOJ/), [IGVFFI7205HPYL](/sequence-files/IGVFFI7205HPYL/), [IGVFFI5000CVQY](/sequence-files/IGVFFI5000CVQY/), [IGVFFI6815SVWK](/sequence-files/IGVFFI6815SVWK/), [IGVFFI7326LCAT](/sequence-files/IGVFFI7326LCAT/), [IGVFFI2580HYWK](/sequence-files/IGVFFI2580HYWK/), [IGVFFI7592LXAT](/sequence-files/IGVFFI7592LXAT/), [IGVFFI1054LOMD](/sequence-files/IGVFFI1054LOMD/), [IGVFFI7318XXJP](/sequence-files/IGVFFI7318XXJP/), [IGVFFI0722LYVA](/sequence-files/IGVFFI0722LYVA/), [IGVFFI9903IIJQ](/sequence-files/IGVFFI9903IIJQ/), [IGVFFI7303UDJH](/sequence-files/IGVFFI7303UDJH/) which do not have any `seqspecs`. Sequence files in a file set associated with bulk data are expected to link to a sequence specification file.",
"level": 30,
"level_name": "INTERNAL_ACTION",
"name": "audit_missing_seqspec",
"path": "/measurement-sets/IGVFDS9126DKWW/"
}
],
"WARNING": [
{
"category": "missing auxiliary set",
"detail": "Measurement set [IGVFDS9126DKWW](/measurement-sets/IGVFDS9126DKWW/) has no cell sorting `auxiliary_sets`. CRISPR-based measurement sets that utilize flow cytometry are expected to link to a cell sorting auxiliary set.",
"level": 40,
"level_name": "WARNING",
"name": "audit_missing_auxiliary_set",
"path": "/measurement-sets/IGVFDS9126DKWW/"
}
]
},
"award": {
"@id": "/awards/HG011972/",
"component": "functional characterization",
"contact_pi": {
"@id": "/users/6c75dbfa-635e-4a7a-8ec8-9e51e9c380a4/",
"title": "Jesse Engreitz"
},
"title": "Stanford Center for Connecting DNA Variants to Function and Phenotype"
},
"construct_library_sets": [
{
"@id": "/construct-library-sets/IGVFDS2374NXLW/",
"accession": "IGVFDS2374NXLW",
"file_set_type": "guide library",
"status": "in progress",
"summary": "guide (sgRNA) library targeting sequence variants in a genomic locus"
}
],
"control_file_sets": [
{
"@id": "/measurement-sets/IGVFDS4989HPTW/",
"accession": "IGVFDS4989HPTW",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-THP1-PE2_Exp1_NegControl_AmpliconSequencing"
],
"status": "released"
}
],
"control_for": [],
"creation_timestamp": "2023-11-30T22:49:22.459158+00:00",
"donors": [
{
"@id": "/human-donors/IGVFDO7359LVPI/",
"accession": "IGVFDO7359LVPI",
"aliases": [
"igvf:donor_of_THP1"
],
"sex": "male",
"status": "released",
"taxa": "Homo sapiens"
}
],
"externally_hosted": false,
"file_set_type": "experimental data",
"files": [
{
"@id": "/sequence-files/IGVFFI7331MKFX/",
"accession": "IGVFFI7331MKFX",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep2_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:11:07.894018+00:00",
"file_format": "fastq",
"file_size": 3134823,
"href": "/sequence-files/IGVFFI7331MKFX/@@download/IGVFFI7331MKFX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/2def3a6b-cb20-4157-ab58-3be62d3d997e/IGVFFI7331MKFX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep2_S224_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0842KHTY/",
"accession": "IGVFFI0842KHTY",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep10_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:09:25.575299+00:00",
"file_format": "fastq",
"file_size": 3558448,
"href": "/sequence-files/IGVFFI0842KHTY/@@download/IGVFFI0842KHTY.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/f3f97798-58da-4d32-9e5d-3b1066a2bb31/IGVFFI0842KHTY.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep10_S322_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8689KTIE/",
"accession": "IGVFFI8689KTIE",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep10_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:09:16.529577+00:00",
"file_format": "fastq",
"file_size": 2937484,
"href": "/sequence-files/IGVFFI8689KTIE/@@download/IGVFFI8689KTIE.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/c1924ede-bfc9-46a0-91de-f34e2f6641af/IGVFFI8689KTIE.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep10_S322_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7241SEXZ/",
"accession": "IGVFFI7241SEXZ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep12_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:10:12.057384+00:00",
"file_format": "fastq",
"file_size": 764550,
"href": "/sequence-files/IGVFFI7241SEXZ/@@download/IGVFFI7241SEXZ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/e5d7b516-d3a4-4873-9052-0d01f5afed56/IGVFFI7241SEXZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep12_S324_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5598LNFE/",
"accession": "IGVFFI5598LNFE",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep1_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:08:48.697294+00:00",
"file_format": "fastq",
"file_size": 3629765,
"href": "/sequence-files/IGVFFI5598LNFE/@@download/IGVFFI5598LNFE.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/820326c8-86d0-4fd0-9219-c374dca62ee1/IGVFFI5598LNFE.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep1_S223_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9160JPFJ/",
"accession": "IGVFFI9160JPFJ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep6_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:13:42.690738+00:00",
"file_format": "fastq",
"file_size": 3206328,
"href": "/sequence-files/IGVFFI9160JPFJ/@@download/IGVFFI9160JPFJ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/b24e3ed9-9eca-4c27-b233-9add3ecb261f/IGVFFI9160JPFJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep6_S228_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9098EJGL/",
"accession": "IGVFFI9098EJGL",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep4_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:12:03.839394+00:00",
"file_format": "fastq",
"file_size": 916176,
"href": "/sequence-files/IGVFFI9098EJGL/@@download/IGVFFI9098EJGL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/193a9f4c-796f-423e-9c14-c4ed76472a39/IGVFFI9098EJGL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep4_S226_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3011PPJO/",
"accession": "IGVFFI3011PPJO",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep3_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:11:26.510288+00:00",
"file_format": "fastq",
"file_size": 875907,
"href": "/sequence-files/IGVFFI3011PPJO/@@download/IGVFFI3011PPJO.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/300dfb5f-9725-4693-9962-eeb1fac8b502/IGVFFI3011PPJO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep3_S225_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7936ZYCP/",
"accession": "IGVFFI7936ZYCP",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep12_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:10:30.317672+00:00",
"file_format": "fastq",
"file_size": 2882579,
"href": "/sequence-files/IGVFFI7936ZYCP/@@download/IGVFFI7936ZYCP.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/9ed5c022-7085-46ba-b189-f337ab2525b2/IGVFFI7936ZYCP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep12_S324_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8114PNBO/",
"accession": "IGVFFI8114PNBO",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep5_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:12:43.395279+00:00",
"file_format": "fastq",
"file_size": 867064,
"href": "/sequence-files/IGVFFI8114PNBO/@@download/IGVFFI8114PNBO.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/075c9112-cad9-4bc5-bca9-47e570fabc5a/IGVFFI8114PNBO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep5_S227_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0612CNEB/",
"accession": "IGVFFI0612CNEB",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep11_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:09:34.955101+00:00",
"file_format": "fastq",
"file_size": 820758,
"href": "/sequence-files/IGVFFI0612CNEB/@@download/IGVFFI0612CNEB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/41cfe226-da12-4763-9490-0ea07fd12f41/IGVFFI0612CNEB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep11_S323_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7172AMPH/",
"accession": "IGVFFI7172AMPH",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep3_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:11:35.752529+00:00",
"file_format": "fastq",
"file_size": 842310,
"href": "/sequence-files/IGVFFI7172AMPH/@@download/IGVFFI7172AMPH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/b2dbcf15-a604-4dc3-8acd-74a14705e771/IGVFFI7172AMPH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep3_S225_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7906BTLR/",
"accession": "IGVFFI7906BTLR",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep9_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:15:43.018299+00:00",
"file_format": "fastq",
"file_size": 3633633,
"href": "/sequence-files/IGVFFI7906BTLR/@@download/IGVFFI7906BTLR.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/ed0c9cb9-cb4b-461b-8f81-99244197aa4d/IGVFFI7906BTLR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep9_S321_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6541PUGX/",
"accession": "IGVFFI6541PUGX",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep9_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:15:24.574639+00:00",
"file_format": "fastq",
"file_size": 817254,
"href": "/sequence-files/IGVFFI6541PUGX/@@download/IGVFFI6541PUGX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/c999afe2-f99d-4373-af0e-556eb8a13f29/IGVFFI6541PUGX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep9_S321_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1659UYGZ/",
"accession": "IGVFFI1659UYGZ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep8_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:14:47.614851+00:00",
"file_format": "fastq",
"file_size": 823909,
"href": "/sequence-files/IGVFFI1659UYGZ/@@download/IGVFFI1659UYGZ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/c840edbe-dcba-4491-9384-76da7fcd3d55/IGVFFI1659UYGZ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep8_S320_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8286VIOO/",
"accession": "IGVFFI8286VIOO",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep11_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:09:53.298408+00:00",
"file_format": "fastq",
"file_size": 2995633,
"href": "/sequence-files/IGVFFI8286VIOO/@@download/IGVFFI8286VIOO.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/517927ed-f2e0-4a0e-947b-9c5c44088be1/IGVFFI8286VIOO.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep11_S323_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7354VXKL/",
"accession": "IGVFFI7354VXKL",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep12_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:10:39.467269+00:00",
"file_format": "fastq",
"file_size": 3490619,
"href": "/sequence-files/IGVFFI7354VXKL/@@download/IGVFFI7354VXKL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/9dcd6618-22ce-438d-a2ca-811e1f5dea62/IGVFFI7354VXKL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep12_S324_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9442PKBX/",
"accession": "IGVFFI9442PKBX",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep8_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:15:06.147639+00:00",
"file_format": "fastq",
"file_size": 3622090,
"href": "/sequence-files/IGVFFI9442PKBX/@@download/IGVFFI9442PKBX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/b930d7c6-d9df-4036-bd58-2b73679e4925/IGVFFI9442PKBX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep8_S320_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0295UQYX/",
"accession": "IGVFFI0295UQYX",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep2_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:10:58.500757+00:00",
"file_format": "fastq",
"file_size": 848554,
"href": "/sequence-files/IGVFFI0295UQYX/@@download/IGVFFI0295UQYX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/86b19a20-512c-4894-ba9a-90fe33a53813/IGVFFI0295UQYX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep2_S224_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5592BNTX/",
"accession": "IGVFFI5592BNTX",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep3_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:11:54.316874+00:00",
"file_format": "fastq",
"file_size": 3729536,
"href": "/sequence-files/IGVFFI5592BNTX/@@download/IGVFFI5592BNTX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/2717ba3c-1fba-4558-81a6-9c1c55bcbce3/IGVFFI5592BNTX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep3_S225_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9587BSPL/",
"accession": "IGVFFI9587BSPL",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep2_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:11:17.268825+00:00",
"file_format": "fastq",
"file_size": 3749182,
"href": "/sequence-files/IGVFFI9587BSPL/@@download/IGVFFI9587BSPL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/2efa22a8-c6ff-493d-829a-7f155bbd3858/IGVFFI9587BSPL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep2_S224_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4688NGNU/",
"accession": "IGVFFI4688NGNU",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep1_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:08:30.103552+00:00",
"file_format": "fastq",
"file_size": 821340,
"href": "/sequence-files/IGVFFI4688NGNU/@@download/IGVFFI4688NGNU.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/ab87a0bb-e194-4e7e-be0d-fd5ec36d4b66/IGVFFI4688NGNU.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep1_S223_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI4942LUEV/",
"accession": "IGVFFI4942LUEV",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep9_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:15:33.820812+00:00",
"file_format": "fastq",
"file_size": 2985797,
"href": "/sequence-files/IGVFFI4942LUEV/@@download/IGVFFI4942LUEV.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/699fc1d6-df7d-47e3-8a0f-d6646d3ac3ad/IGVFFI4942LUEV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep9_S321_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9662YHWJ/",
"accession": "IGVFFI9662YHWJ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep12_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:10:21.145362+00:00",
"file_format": "fastq",
"file_size": 781019,
"href": "/sequence-files/IGVFFI9662YHWJ/@@download/IGVFFI9662YHWJ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/dd6f79b6-5ce5-404a-b12c-1e5b87fef9de/IGVFFI9662YHWJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep12_S324_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8114SXIX/",
"accession": "IGVFFI8114SXIX",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep6_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:13:51.833848+00:00",
"file_format": "fastq",
"file_size": 3814398,
"href": "/sequence-files/IGVFFI8114SXIX/@@download/IGVFFI8114SXIX.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/c72155e4-8aa7-4e68-b92e-12765948fbb7/IGVFFI8114SXIX.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep6_S228_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI3078NRBR/",
"accession": "IGVFFI3078NRBR",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep6_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:13:29.845363+00:00",
"file_format": "fastq",
"file_size": 864617,
"href": "/sequence-files/IGVFFI3078NRBR/@@download/IGVFFI3078NRBR.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/ecd59944-1f83-406e-898a-45a68f00bb57/IGVFFI3078NRBR.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep6_S228_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2795CFUT/",
"accession": "IGVFFI2795CFUT",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep7_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:14:19.792100+00:00",
"file_format": "fastq",
"file_size": 2865270,
"href": "/sequence-files/IGVFFI2795CFUT/@@download/IGVFFI2795CFUT.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/ed494f10-719f-4a97-a94d-b1493772ef7f/IGVFFI2795CFUT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep7_S319_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7922MDZC/",
"accession": "IGVFFI7922MDZC",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep1_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:08:20.999272+00:00",
"file_format": "fastq",
"file_size": 887651,
"href": "/sequence-files/IGVFFI7922MDZC/@@download/IGVFFI7922MDZC.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/537f9cfb-341e-4627-9e1f-32a40ecdd28f/IGVFFI7922MDZC.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep1_S223_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6314AXIQ/",
"accession": "IGVFFI6314AXIQ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep7_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:14:10.593702+00:00",
"file_format": "fastq",
"file_size": 782301,
"href": "/sequence-files/IGVFFI6314AXIQ/@@download/IGVFFI6314AXIQ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/77fe5dd4-ade2-414c-a5de-24b3d27bf042/IGVFFI6314AXIQ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep7_S319_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2363WZZB/",
"accession": "IGVFFI2363WZZB",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep2_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:10:48.676651+00:00",
"file_format": "fastq",
"file_size": 849515,
"href": "/sequence-files/IGVFFI2363WZZB/@@download/IGVFFI2363WZZB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/035ffc95-7537-4103-a37a-080da240d605/IGVFFI2363WZZB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep2_S224_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5894XEVD/",
"accession": "IGVFFI5894XEVD",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep3_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:11:45.076847+00:00",
"file_format": "fastq",
"file_size": 3126158,
"href": "/sequence-files/IGVFFI5894XEVD/@@download/IGVFFI5894XEVD.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/d9884024-7612-42fa-a452-bafc56a14b5e/IGVFFI5894XEVD.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep3_S225_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0563VEXH/",
"accession": "IGVFFI0563VEXH",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep8_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:14:56.861937+00:00",
"file_format": "fastq",
"file_size": 2970846,
"href": "/sequence-files/IGVFFI0563VEXH/@@download/IGVFFI0563VEXH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/e2762a41-c9f0-4bd1-9f05-7f744062a9a0/IGVFFI0563VEXH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep8_S320_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9807GRVB/",
"accession": "IGVFFI9807GRVB",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep8_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:14:38.293739+00:00",
"file_format": "fastq",
"file_size": 806720,
"href": "/sequence-files/IGVFFI9807GRVB/@@download/IGVFFI9807GRVB.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/172039ae-7fff-44ee-a91b-888f50450ec0/IGVFFI9807GRVB.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep8_S320_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8627RIAN/",
"accession": "IGVFFI8627RIAN",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep4_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:12:15.945715+00:00",
"file_format": "fastq",
"file_size": 864294,
"href": "/sequence-files/IGVFFI8627RIAN/@@download/IGVFFI8627RIAN.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/50e1a8e9-08d8-4d9f-815a-958e7bb6b0aa/IGVFFI8627RIAN.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep4_S226_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1578XZVS/",
"accession": "IGVFFI1578XZVS",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep4_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:12:34.257347+00:00",
"file_format": "fastq",
"file_size": 3806036,
"href": "/sequence-files/IGVFFI1578XZVS/@@download/IGVFFI1578XZVS.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/88c78969-0572-4d1a-9eeb-0030dfe0e059/IGVFFI1578XZVS.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep4_S226_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5961PXUV/",
"accession": "IGVFFI5961PXUV",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep6_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:13:20.144267+00:00",
"file_format": "fastq",
"file_size": 858208,
"href": "/sequence-files/IGVFFI5961PXUV/@@download/IGVFFI5961PXUV.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/a223f055-786f-4a18-aa0e-0e6301e068d0/IGVFFI5961PXUV.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep6_S228_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI8035NMOJ/",
"accession": "IGVFFI8035NMOJ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep5_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:12:52.443163+00:00",
"file_format": "fastq",
"file_size": 833730,
"href": "/sequence-files/IGVFFI8035NMOJ/@@download/IGVFFI8035NMOJ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/83494479-c90f-4197-8ddc-8834a1b4e818/IGVFFI8035NMOJ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep5_S227_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7205HPYL/",
"accession": "IGVFFI7205HPYL",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep4_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:12:25.131550+00:00",
"file_format": "fastq",
"file_size": 3199620,
"href": "/sequence-files/IGVFFI7205HPYL/@@download/IGVFFI7205HPYL.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/03413f9c-227b-45da-b32f-af8df9c53dc0/IGVFFI7205HPYL.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep4_S226_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI5000CVQY/",
"accession": "IGVFFI5000CVQY",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep7_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:14:29.035183+00:00",
"file_format": "fastq",
"file_size": 3473762,
"href": "/sequence-files/IGVFFI5000CVQY/@@download/IGVFFI5000CVQY.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/95b59745-6653-49e3-9767-8765a831d5d1/IGVFFI5000CVQY.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep7_S319_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI6815SVWK/",
"accession": "IGVFFI6815SVWK",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep7_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:14:01.088167+00:00",
"file_format": "fastq",
"file_size": 819815,
"href": "/sequence-files/IGVFFI6815SVWK/@@download/IGVFFI6815SVWK.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/938e3ae5-7dfe-450c-b1e0-6fc1774af82c/IGVFFI6815SVWK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep7_S319_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7326LCAT/",
"accession": "IGVFFI7326LCAT",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep11_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:10:02.460378+00:00",
"file_format": "fastq",
"file_size": 3597509,
"href": "/sequence-files/IGVFFI7326LCAT/@@download/IGVFFI7326LCAT.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/c5a291f4-527e-41e6-9f66-fdfb7285628e/IGVFFI7326LCAT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep11_S323_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI2580HYWK/",
"accession": "IGVFFI2580HYWK",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep5_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:13:01.601568+00:00",
"file_format": "fastq",
"file_size": 3117323,
"href": "/sequence-files/IGVFFI2580HYWK/@@download/IGVFFI2580HYWK.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/793514a7-af04-4832-af37-2a1765d4d373/IGVFFI2580HYWK.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep5_S227_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7592LXAT/",
"accession": "IGVFFI7592LXAT",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep10_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:08:57.994837+00:00",
"file_format": "fastq",
"file_size": 830277,
"href": "/sequence-files/IGVFFI7592LXAT/@@download/IGVFFI7592LXAT.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/c1f34724-7677-4947-8463-c8bf5c4c378e/IGVFFI7592LXAT.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep10_S322_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI1054LOMD/",
"accession": "IGVFFI1054LOMD",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep10_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:09:07.394821+00:00",
"file_format": "fastq",
"file_size": 802077,
"href": "/sequence-files/IGVFFI1054LOMD/@@download/IGVFFI1054LOMD.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/6e434e64-ea5d-48fb-ace7-4fdb10dfa1be/IGVFFI1054LOMD.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep10_S322_I2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7318XXJP/",
"accession": "IGVFFI7318XXJP",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep1_R1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:08:39.352580+00:00",
"file_format": "fastq",
"file_size": 3050873,
"href": "/sequence-files/IGVFFI7318XXJP/@@download/IGVFFI7318XXJP.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/9a605e08-27b9-4a47-9971-82551799ea15/IGVFFI7318XXJP.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep1_S223_R1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI0722LYVA/",
"accession": "IGVFFI0722LYVA",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep5_R2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:13:10.943714+00:00",
"file_format": "fastq",
"file_size": 3684159,
"href": "/sequence-files/IGVFFI0722LYVA/@@download/IGVFFI0722LYVA.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/ba26607a-8317-4061-b9aa-80974702cc59/IGVFFI0722LYVA.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep5_S227_R2_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI9903IIJQ/",
"accession": "IGVFFI9903IIJQ",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep9_I1"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:15:15.353411+00:00",
"file_format": "fastq",
"file_size": 822981,
"href": "/sequence-files/IGVFFI9903IIJQ/@@download/IGVFFI9903IIJQ.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/ee6d3bcb-20bc-469f-8573-3d4971b0a501/IGVFFI9903IIJQ.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep9_S321_I1_001.fastq.gz",
"upload_status": "validated"
},
{
"@id": "/sequence-files/IGVFFI7303UDJH/",
"accession": "IGVFFI7303UDJH",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep11_I2"
],
"content_type": "reads",
"controlled_access": false,
"creation_timestamp": "2023-12-05T23:09:44.155464+00:00",
"file_format": "fastq",
"file_size": 812601,
"href": "/sequence-files/IGVFFI7303UDJH/@@download/IGVFFI7303UDJH.fastq.gz",
"s3_uri": "s3://igvf-files/2023/12/05/a6f02e1c-1746-4761-8cfb-4fb01f0524e9/IGVFFI7303UDJH.fastq.gz",
"sequencing_platform": {
"@id": "/platform-terms/EFO_0008566/",
"status": "released",
"term_name": "Illumina NextSeq 550"
},
"status": "released",
"submitted_file_name": "230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC-PCRrep11_S323_I2_001.fastq.gz",
"upload_status": "validated"
}
],
"input_for": [
"/analysis-sets/IGVFDS5031MNRR/"
],
"lab": {
"@id": "/labs/jesse-engreitz/",
"title": "Jesse Engreitz, Stanford"
},
"notes": "The readout 2e41e624-f6c7-4f0c-a07e-bc36cefdca39 was removed from this measurement set. This measurement set previously used Variant FlowFISH as a preferred_assay_title, but this enum is now removed. So it has been defaulted to Variant-EFFECTS.",
"preferred_assay_title": "Variant-EFFECTS",
"protocols": [
"https://www.protocols.io/view/flowfish-with-primeflow-36wgq3q4olk5/v1"
],
"release_timestamp": "2023-12-20T23:07:08.106709+00:00",
"samples": [
{
"@id": "/in-vitro-systems/IGVFSM1488CZUU/",
"@type": [
"InVitroSystem",
"Biosample",
"Sample",
"Item"
],
"accession": "IGVFSM1488CZUU",
"aliases": [
"jesse-engreitz:230531S019-THP1-P151-Amp_PPIF_enhancer-BioRep2-FFrep3-BinC"
],
"classifications": [
"cell line"
],
"institutional_certificates": [],
"modifications": [
{
"@id": "/crispr-modifications/fc6bc0b3-a064-47d0-b95d-a9af14bb1624/",
"modality": "prime editing",
"status": "released"
}
],
"sample_terms": [
{
"@id": "/sample-terms/EFO_0001253/",
"@type": [
"SampleTerm",
"OntologyTerm",
"Item"
],
"aliases": [
"igvf:THP-1"
],
"status": "released",
"summary": "THP-1",
"term_name": "THP-1"
}
],
"status": "released",
"summary": "Homo sapiens (male) THP-1 cell line (sorting details: FACS bin for 51-75% expression of PPIF) modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transduced (lentivirus) with a guide library",
"taxa": "Homo sapiens"
}
],
"schema_version": "26",
"status": "released",
"submitted_by": {
"@id": "/users/f9e7cd82-a407-4a20-89ee-f4dc668b0cbe/",
"title": "Michael Montgomery"
},
"submitted_files_timestamp": "2023-12-05T23:08:20.999272+00:00",
"summary": "CRISPR prime editing Variant-EFFECTS sorted on the expression of PPIF integrating a guide (sgRNA) library targeting sequence variants in a genomic locus",
"targeted_genes": [
{
"@id": "/genes/ENSG00000108179/",
"geneid": "ENSG00000108179",
"name": "peptidylprolyl isomerase F",
"status": "released",
"symbol": "PPIF",
"synonyms": [
"PPIase F",
"peptidylprolyl isomerase F",
"Cyp-D",
"peptidyl-prolyl cis-trans isomerase F, mitochondrial",
"PPIF",
"CyP-M",
"cyclophilin F",
"peptidyl-prolyl cis-trans isomerase, mitochondrial",
"cyclophilin 3",
"cyclophilin D",
"rotamase F",
"mitochondrial cyclophilin",
"CypD",
"CYP3"
]
}
],
"uuid": "2749a5ff-b97a-4027-b78f-8794183e92b4"
}